Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01013397.1 Corchorus capsularis cultivar CVL-1 contig13418, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 138448
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:6140 original size:14 final size:14
Alignment explanation
Indices: 6118--6147 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6108 AGGAGCAAAT
*
6118 TCCCTTTCTCCCTC
1 TCCCCTTCTCCCTC
6132 TCCCCTTCTCCCTC
1 TCCCCTTCTCCCTC
6146 TC
1 TC
6148 TAGTTCTCGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (14 bp):
TCCCCTTCTCCCTC
Found at i:8174 original size:3 final size:3
Alignment explanation
Indices: 8166--8191 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8156 CGCAAGAGGG
8166 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
8192 AAAGAAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8796 original size:88 final size:87
Alignment explanation
Indices: 8647--8820 Score: 276
Period size: 88 Copynumber: 2.0 Consensus size: 87
8637 TCCCCTTAAG
* * *
8647 ATAAGCTAAACCCGAACACGACTAAACAGCTTGTGGGTCGTGTCGTGTCATGTGCAAAATTATCG
1 ATAAGCTAAACCCGAACACGACTAAACAGCTTGCGGGTCGTGTCGTGTCATGTGCAAAATTACCA
8712 GGTCTAGACTGAGCAAACACATT
66 GGTCTA-ACTGAGCAAACACATT
* * *
8735 ATAAGCTAAACTCGAACACGACTAAACAGCTTGCGGGTCGTGTTGTGTCGTGTGCAAAATTACCA
1 ATAAGCTAAACCCGAACACGACTAAACAGCTTGCGGGTCGTGTCGTGTCATGTGCAAAATTACCA
*
8800 GGTCTAATTGAGCAAACACAT
66 GGTCTAACTGAGCAAACACAT
8821 GGAGACTATA
Statistics
Matches: 79, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
87 14 0.18
88 65 0.82
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.24
Consensus pattern (87 bp):
ATAAGCTAAACCCGAACACGACTAAACAGCTTGCGGGTCGTGTCGTGTCATGTGCAAAATTACCA
GGTCTAACTGAGCAAACACATT
Found at i:16742 original size:2 final size:2
Alignment explanation
Indices: 16735--16761 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
16725 GATTCAGAGA
16735 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
16762 ATTAAGTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24990 original size:6 final size:6
Alignment explanation
Indices: 24979--25014 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
24969 GAAATTAAGC
*
24979 AGAACA AGAACA AGAACA AGAATA AGAAC- AGAACA A
1 AGAACA AGAACA AGAACA AGAACA AGAACA AGAACA A
25015 CTCTGTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.67, C:0.14, G:0.17, T:0.03
Consensus pattern (6 bp):
AGAACA
Found at i:26802 original size:16 final size:15
Alignment explanation
Indices: 26781--26810 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
26771 AGCTTTGGTT
26781 TTCTCTTCTGTCTTTC
1 TTCTCTTCT-TCTTTC
26797 TTCTCTTCTTCTTT
1 TTCTCTTCTTCTTT
26811 GGATTCAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.00, C:0.30, G:0.03, T:0.67
Consensus pattern (15 bp):
TTCTCTTCTTCTTTC
Found at i:29369 original size:18 final size:19
Alignment explanation
Indices: 29339--29388 Score: 84
Period size: 19 Copynumber: 2.6 Consensus size: 19
29329 ATGACTAATT
29339 AAAATAATCTTTTAT-AAAA
1 AAAATAAT-TTTTATAAAAA
29358 AAAATAATTTTTATAAAAA
1 AAAATAATTTTTATAAAAA
29377 AAAATAATTTTT
1 AAAATAATTTTT
29389 TTTTGTTAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.20
19 24 0.80
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAATAATTTTTATAAAAA
Found at i:29779 original size:3 final size:3
Alignment explanation
Indices: 29771--29799 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
29761 AAAAGATTTG
29771 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
29800 TCATTTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:38452 original size:2 final size:2
Alignment explanation
Indices: 38445--38474 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
38435 TTAAATGCTT
*
38445 TA TA TA TA TA TA CA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
38475 CATACTCCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:47306 original size:110 final size:109
Alignment explanation
Indices: 47069--47349 Score: 411
Period size: 110 Copynumber: 2.5 Consensus size: 109
47059 ACTATTATAG
* *
47069 TTTTATTCTACTAGAAACTCTATTTTTATTCAATTAAATTAAATCTAATATCTTTATAATTACTT
1 TTTTATTCTACTAAAAACTCTA---TT-TTC-ATTTAATTAAATCTAATATCTTTATAATTACTT
* * **
47134 TATTTTTACCAAAATATTTGGATATACTAAAATTTTTTCTAATATACAA
61 TATTTTTACCAAAAAAATTGGATATACTAAAAAATTTTCTAATATACAA
47183 TTTTATTCTACTAAAAACTCTATTTTCATTTAATTAAATCTAATATCTTTATAATTACTTTATTT
1 TTTTATTCTACTAAAAACTCTATTTTCATTTAATTAAATCTAATATCTTTATAATTACTTTATTT
*
47248 TTACCAAAAAAAATTGGATATATTAAAAAATTTTCTAATATACAA
66 TTACC-AAAAAAATTGGATATACTAAAAAATTTTCTAATATACAA
*
47293 TTTTATTCTACTAAAAACTCTATTTTCATTTAATTAAAT-TCAATATTCTATATAATT
1 TTTTATTCTACTAAAAACTCTATTTTCATTTAATTAAATCT-AATA-TCTTTATAATT
47350 TTTTTTTTAT
Statistics
Matches: 156, Mismatches: 8, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
109 43 0.28
110 80 0.51
111 12 0.08
114 21 0.13
ACGTcount: A:0.39, C:0.11, G:0.02, T:0.48
Consensus pattern (109 bp):
TTTTATTCTACTAAAAACTCTATTTTCATTTAATTAAATCTAATATCTTTATAATTACTTTATTT
TTACCAAAAAAATTGGATATACTAAAAAATTTTCTAATATACAA
Found at i:48846 original size:21 final size:19
Alignment explanation
Indices: 48820--48876 Score: 69
Period size: 21 Copynumber: 2.9 Consensus size: 19
48810 CCCTGCTCCA
*
48820 ATAATCTCATCTGTATAGT
1 ATAATCTCATCTGTACAGT
*
48839 ACATAATCTAATCTGTACAGT
1 --ATAATCTCATCTGTACAGT
*
48860 GTAATCTCATCTGTACA
1 ATAATCTCATCTGTACA
48877 ATTACTAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 15 0.47
21 17 0.53
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (19 bp):
ATAATCTCATCTGTACAGT
Found at i:53871 original size:60 final size:60
Alignment explanation
Indices: 53798--54051 Score: 355
Period size: 60 Copynumber: 4.2 Consensus size: 60
53788 AGGAGGTGGT
*
53798 GGAGGTGGAGGAGGTGCGGATTTAGAAGCTGAGTTTTCCTTCAAAGGTGGCATTGGAGGA
1 GGAGGTGGAGGAGGTACGGATTTAGAAGCTGAGTTTTCCTTCAAAGGTGGCATTGGAGGA
* * * * *
53858 GGAGGTGGTGGAGGTGCAGATATAGAAGCTGAGTTTTCCTTCAAAGGTGGCAATGGAGGA
1 GGAGGTGGAGGAGGTACGGATTTAGAAGCTGAGTTTTCCTTCAAAGGTGGCATTGGAGGA
** * * **
53918 GGAGGTGGAGGAGGTACGTTTTTAGAAGCTGAATTTTCATTCATTGGTGGCATTGGAGGA
1 GGAGGTGGAGGAGGTACGGATTTAGAAGCTGAGTTTTCCTTCAAAGGTGGCATTGGAGGA
* * * *
53978 GGAGGTGGAGGAGGTATGGATTTAGAAGCTGAGATTTCCTTCAGATGTGGCATTGGAGGA
1 GGAGGTGGAGGAGGTACGGATTTAGAAGCTGAGTTTTCCTTCAAAGGTGGCATTGGAGGA
*
54038 GGAGGAGGAGGAGG
1 GGAGGTGGAGGAGG
54052 AGGTATAGCA
Statistics
Matches: 169, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 169 1.00
ACGTcount: A:0.25, C:0.09, G:0.41, T:0.25
Consensus pattern (60 bp):
GGAGGTGGAGGAGGTACGGATTTAGAAGCTGAGTTTTCCTTCAAAGGTGGCATTGGAGGA
Found at i:57760 original size:11 final size:11
Alignment explanation
Indices: 57744--57777 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
57734 TAATTTACAT
57744 TATTTAGAGTA
1 TATTTAGAGTA
*
57755 TATTTAGATTA
1 TATTTAGAGTA
*
57766 TATTTTGAGTA
1 TATTTAGAGTA
57777 T
1 T
57778 TATTATTGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (11 bp):
TATTTAGAGTA
Found at i:74478 original size:21 final size:21
Alignment explanation
Indices: 74454--74495 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
74444 GGTTTAATCA
74454 GTCGGTCTAGCTTTATTTCTT
1 GTCGGTCTAGCTTTATTTCTT
74475 GTCGGTCTAGCTTTATTTCTT
1 GTCGGTCTAGCTTTATTTCTT
74496 TGAAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.10, C:0.19, G:0.19, T:0.52
Consensus pattern (21 bp):
GTCGGTCTAGCTTTATTTCTT
Found at i:85775 original size:2 final size:2
Alignment explanation
Indices: 85768--85811 Score: 79
Period size: 2 Copynumber: 21.5 Consensus size: 2
85758 ATATACCCCT
85768 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TAC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T-C TC TC
85811 T
1 T
85812 TTCCACTTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 39 0.95
3 2 0.05
ACGTcount: A:0.02, C:0.48, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:90967 original size:29 final size:29
Alignment explanation
Indices: 90908--90963 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
90898 CCAAAAGGAC
**
90908 CAAAACAAAGTGAATTGGGCCTTAATTGA
1 CAAAACAAAGTGAATTGGGCCTTAAGGGA
90937 CAAAA-AAAGTGAATTGGGCCTTAAGGG
1 CAAAACAAAGTGAATTGGGCCTTAAGGG
90964 GACAGTCAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 20 0.80
29 5 0.20
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.21
Consensus pattern (29 bp):
CAAAACAAAGTGAATTGGGCCTTAAGGGA
Found at i:101330 original size:30 final size:30
Alignment explanation
Indices: 101294--101384 Score: 182
Period size: 30 Copynumber: 3.0 Consensus size: 30
101284 CTGCTCATAC
101294 ATTTCATACATTTATGTTTGTATGGGATTA
1 ATTTCATACATTTATGTTTGTATGGGATTA
101324 ATTTCATACATTTATGTTTGTATGGGATTA
1 ATTTCATACATTTATGTTTGTATGGGATTA
101354 ATTTCATACATTTATGTTTGTATGGGATTA
1 ATTTCATACATTTATGTTTGTATGGGATTA
101384 A
1 A
101385 CATGTACGGA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.27, C:0.07, G:0.16, T:0.49
Consensus pattern (30 bp):
ATTTCATACATTTATGTTTGTATGGGATTA
Found at i:102359 original size:60 final size:60
Alignment explanation
Indices: 102285--102403 Score: 229
Period size: 60 Copynumber: 2.0 Consensus size: 60
102275 CGACACGGCC
*
102285 CACCAAGTGCTCCTCTTGTTGCTGCCGCTGCTCCTGCCTCTATGAACAACTTACAATTTT
1 CACCAAGCGCTCCTCTTGTTGCTGCCGCTGCTCCTGCCTCTATGAACAACTTACAATTTT
102345 CACCAAGCGCTCCTCTTGTTGCTGCCGCTGCTCCTGCCTCTATGAACAACTTACAATTT
1 CACCAAGCGCTCCTCTTGTTGCTGCCGCTGCTCCTGCCTCTATGAACAACTTACAATTT
102404 AAAAAAACAG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.18, C:0.34, G:0.15, T:0.32
Consensus pattern (60 bp):
CACCAAGCGCTCCTCTTGTTGCTGCCGCTGCTCCTGCCTCTATGAACAACTTACAATTTT
Found at i:111553 original size:16 final size:16
Alignment explanation
Indices: 111515--111545 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
111505 CATCTCTCTT
*
111515 TTTTCTTTTTTTTTCC
1 TTTTCTTTTTCTTTCC
111531 TTTTCTTTTTCTTTC
1 TTTTCTTTTTCTTTC
111546 TTGTTCTTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTCTTTTTCTTTCC
Found at i:113293 original size:30 final size:31
Alignment explanation
Indices: 113259--113325 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 31
113249 TTTTAAACAT
*
113259 GTGGCATGCCACGTGTC-ACTTTTGGTACAC
1 GTGGCATGACACGTGTCAACTTTTGGTACAC
* * * * *
113289 GTGGCGTGACATGTGTCAATTTTTGGTATAT
1 GTGGCATGACACGTGTCAACTTTTGGTACAC
113320 GTGGCA
1 GTGGCA
113326 CGACTTTTTG
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
30 14 0.48
31 15 0.52
ACGTcount: A:0.18, C:0.18, G:0.30, T:0.34
Consensus pattern (31 bp):
GTGGCATGACACGTGTCAACTTTTGGTACAC
Found at i:115454 original size:36 final size:36
Alignment explanation
Indices: 115414--115485 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
115404 ACTTCTCTCT
115414 TAGGTGAAAAATGAACTAATTGACAGATATCAGCAA
1 TAGGTGAAAAATGAACTAATTGACAGATATCAGCAA
*
115450 TAGGTGAAAAATGAACTAATTGACAGATATCGGCAA
1 TAGGTGAAAAATGAACTAATTGACAGATATCAGCAA
115486 CAATAATACT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.46, C:0.11, G:0.21, T:0.22
Consensus pattern (36 bp):
TAGGTGAAAAATGAACTAATTGACAGATATCAGCAA
Found at i:117287 original size:30 final size:30
Alignment explanation
Indices: 117230--117295 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
117220 GTTTGAGGGT
117230 AAAATGTCCCAAAATTAAAGTTCA-GGGGA
1 AAAATGTCCCAAAATTAAAGTTCAGGGGGA
* *
117259 CAAAATGT-CCAAAATTAAAATTTTAGGGGGA
1 -AAAATGTCCCAAAATT-AAAGTTCAGGGGGA
117290 AAAATG
1 AAAATG
117296 GTACATAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 8 0.25
30 19 0.59
31 5 0.16
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.23
Consensus pattern (30 bp):
AAAATGTCCCAAAATTAAAGTTCAGGGGGA
Found at i:121970 original size:16 final size:16
Alignment explanation
Indices: 121949--121980 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
121939 AAATTGTGCC
121949 ACTTTACCTCTTGAAT
1 ACTTTACCTCTTGAAT
121965 ACTTTACCTCTTGAAT
1 ACTTTACCTCTTGAAT
121981 TTACAAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (16 bp):
ACTTTACCTCTTGAAT
Found at i:124755 original size:30 final size:30
Alignment explanation
Indices: 124719--124778 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
124709 TTTCATTTCA
* *
124719 CTTATAATAGTATTTTTCAAAACCTTACAT
1 CTTATAATAGCATTTCTCAAAACCTTACAT
**
124749 CTTATAATAGCATTTCTCATGACCTTACAT
1 CTTATAATAGCATTTCTCAAAACCTTACAT
124779 ACAACTGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.42
Consensus pattern (30 bp):
CTTATAATAGCATTTCTCAAAACCTTACAT
Found at i:125671 original size:16 final size:14
Alignment explanation
Indices: 125641--125667 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
125631 TGGTGTCATT
125641 CTGCAAAAATATAC
1 CTGCAAAAATATAC
125655 CTGCAAAAATATA
1 CTGCAAAAATATA
125668 TACCAAAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (14 bp):
CTGCAAAAATATAC
Found at i:127033 original size:25 final size:25
Alignment explanation
Indices: 126999--127049 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
126989 TTGCCTGACA
*
126999 TTGTTTTGACCTCTCAGTGAATCAG
1 TTGTTTTGACCTCTCAGTAAATCAG
*
127024 TTGTTTTGACCTCTCGGTAAATCAG
1 TTGTTTTGACCTCTCAGTAAATCAG
127049 T
1 T
127050 AATGAATAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (25 bp):
TTGTTTTGACCTCTCAGTAAATCAG
Found at i:131705 original size:31 final size:31
Alignment explanation
Indices: 131667--131729 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
131657 ATCCTTCCAT
131667 TATATGTAGTCTTAGATTTCACTTCACATTA
1 TATATGTAGTCTTAGATTTCACTTCACATTA
131698 TATATGTAGTCTTAGATTTCACTTCACATTA
1 TATATGTAGTCTTAGATTTCACTTCACATTA
131729 T
1 T
131730 GGTTACTAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.46
Consensus pattern (31 bp):
TATATGTAGTCTTAGATTTCACTTCACATTA
Found at i:132111 original size:20 final size:21
Alignment explanation
Indices: 132076--132121 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
132066 AAATATTATA
*
132076 TTTATCCTATAATGGGTAATT
1 TTTATCCTAAAATGGGTAATT
132097 TTTAT-CTAAAATGGGTAATT
1 TTTATCCTAAAATGGGTAATT
132117 TTTAT
1 TTTAT
132122 TTTATTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (21 bp):
TTTATCCTAAAATGGGTAATT
Found at i:138168 original size:2 final size:2
Alignment explanation
Indices: 138161--138202 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
138151 AATAATAGAT
138161 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
138203 ATACAAATCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.